Contents

Summary

The sections below are hierarchical classifications of biomedical computing software, currently focused on the NIH Roadmap National Centers for Biomedical Computing (NCBC). This effort stemmed out of a software ontology initiative and meeting minutes that were led by Ivo Dinov from the Center for Computational Biology. These data have been incorporated in the draft protege document (Daniel Rubin and Mark Musen)

Magnet

Tools are broken down into 2 large categories: Analyses and Databases. Each category is further specified by functionality (analyses) or content (databases). Where available, URLs are provided. For analyses, the primary input data type is indicated in parentheses next to the name of the analytical tool. Databases are accompanied by associated querying tools (such tools are not listed here as separate entries).

IATR

The Internet Analysis Tool Registry (IATR) is a website dedicated to (trying to) provide a centrally available listing of all image analysis tools that are available to the neuroscience community in order to facilitate the development, identification, and sharing of tools that are of use to the general community. It is hoped that this helps the "tool developers" to get their tools to a larger user community and to reduce redundancy (or at least utilize tool redundancy to facilitate optimal tool design) in tool development.

As part of this effort, we have had users indicate software keywords to describe tool functionallity, funding source, interface options, operating platforms, etc. Through this collection of information, the following prototype image analysis software tool function vocabulary has been constructed.

We have developed project-specific entry points into the registry. Thus, with one simple URL, one can come into the site at the result of a search for a specific set of tools. Examples of this include:

This vocabulary is a prototype, work-in-progress, suggestion, open for input and revision kind of thing. Feel free to provide (constructuve!) feedback in this effort, and it's interoperation with other similar efforts.